Ager (advanced glycosylation end product-specific receptor) - Rat Genome Database

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Gene: Ager (advanced glycosylation end product-specific receptor) Rattus norvegicus
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Symbol: Ager
Name: advanced glycosylation end product-specific receptor
RGD ID: 69258
Description: Exhibits S100 protein binding activity and high mobility group box 1 binding activity. Involved in several processes, including positive regulation of apoptotic process; regulation of cell migration; and response to hexose. Localizes to several cellular components, including basal plasma membrane; cell surface; and neuronal cell body. Used to study several diseases, including diabetic retinopathy; impotence; renal fibrosis; thromboangiitis obliterans; and type 2 diabetes mellitus. Biomarker of several diseases, including bone disease (multiple); cardiovascular system disease (multiple); colorectal carcinoma; diabetic encephalopathy; and lung disease (multiple). Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); cardiovascular system disease (multiple); cystic fibrosis; kidney failure (multiple); and lupus nephritis. Orthologous to human AGER (advanced glycosylation end-product specific receptor); PARTICIPATES IN Ras mediated signaling pathway; receptor for advanced glycation end-products signaling pathway; INTERACTS WITH 2,4,6-trinitrobenzenesulfonic acid; 3,4-dihydroxybenzaldehyde; acrolein.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: advanced glycosylation end product-specific receptor variant 2; advanced glycosylation end product-specific receptor variant 3; advanced glycosylation end product-specific receptor variant 4; advanced glycosylation end product-specific receptor variant 5; RAGE; receptor for advanced glycosylation end products
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2204,148,150 - 4,151,361 (-)NCBI
Rnor_6.0 Ensembl204,363,152 - 4,366,079 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0204,363,152 - 4,366,079 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0206,442,508 - 6,445,435 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,250,613 - 4,253,540 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1204,250,839 - 4,253,767 (-)NCBI
Celera203,879,126 - 3,882,053 (+)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Coronary Syndrome  (ISO)
acute kidney failure  (ISO)
Acute Lung Injury  (IEP)
adult respiratory distress syndrome  (IEP)
Albuminuria  (IDA,ISO)
Alzheimer's disease  (IDA,IEP,ISO)
Aortic Calcification  (IEP)
aortic disease  (IEP)
aspergillosis  (ISO)
asthma  (IDA,IEP,ISO)
atherosclerosis  (IEP,ISO)
atrial fibrillation  (ISO)
bacterial pneumonia  (ISO)
Brain Injuries  (IEP,ISO)
brain ischemia  (IEP)
Breast Neoplasms  (ISO)
Cardiac Fibrosis  (IEP)
cardiovascular system disease  (IEP,ISO)
carotid artery disease  (IEP,ISO)
Carotid Artery Injuries  (IMP)
cerebral infarction  (ISO)
chorioamnionitis  (ISO)
Chronic Allograft Dysfunction  (IEP)
chronic kidney disease  (ISO)
chronic obstructive pulmonary disease  (ISO)
clear cell renal cell carcinoma  (ISO)
colorectal carcinoma  (IEP)
congestive heart failure  (ISO)
contact dermatitis  (ISO)
Cor pulmonale  (ISO)
coronary artery disease  (ISO)
Coronary Disease  (ISO)
cystic fibrosis  (ISO)
diabetes mellitus  (ISO)
diabetic angiopathy  (ISO)
Diabetic Cardiomyopathies  (IDA,IEP)
diabetic encephalopathy  (IEP)
Diabetic Foot  (ISO)
Diabetic Nephropathies  (IDA,IEP,ISO)
diabetic neuropathy  (ISO)
diabetic retinopathy  (IDA,IEP,ISO)
end stage renal disease  (ISO)
Epidermal Hyperplasia  (ISO)
Experimental Autoimmune Myocarditis  (IEP)
Experimental Diabetes Mellitus  (IDA,IEP,ISO)
Fibrosis  (IDA)
Gastrointestinal Diseases  (IDA,IEP)
glomerulosclerosis  (ISO)
Hyperalgesia  (IEP,IMP,ISO)
hyperglycemia  (ISO)
Hyperoxia  (IEP)
hypertension  (IEP,ISO)
Hypertrophy  (ISO)
impotence  (IDA)
Inflammation  (ISO)
inflammatory bowel disease  (ISO)
intracranial aneurysm  (IEP)
invasive aspergillosis  (ISO)
invasive ductal carcinoma  (ISO)
Kawasaki disease  (ISO)
kidney disease  (ISO)
Left Ventricular Hypertrophy  (ISO)
leishmaniasis  (ISO)
Lewy body dementia  (ISO)
liver cirrhosis  (ISO)
Liver Reperfusion Injury  (IEP)
Lung Injury  (IEP)
Lung Neoplasms  (ISO)
lung non-small cell carcinoma  (ISO)
lupus nephritis  (ISO)
melanoma  (ISO)
middle cerebral artery infarction  (IEP,ISO)
morbid obesity  (ISO)
multiple sclerosis  (ISO)
myocardial infarction  (IEP,ISO)
Myocardial Ischemia  (ISO)
Myocardial Reperfusion Injury  (IEP)
Neointima  (ISO)
neovascular inflammatory vitreoretinopathy  (ISO)
Neuralgia  (ISO)
obesity  (ISO)
optic nerve disease  (ISO)
osteoarthritis  (IEP,ISO)
osteoporosis  (IEP,ISO)
pancreas disease  (ISO)
pancreatic cancer  (ISO)
periodontitis  (IEP,ISO)
Peripheral Nerve Injuries  (ISO)
Peritoneal Fibrosis  (IDA)
polycystic kidney disease  (ISO)
proliferative diabetic retinopathy  (ISO)
prostate cancer  (ISO)
proteinuria  (ISO)
psoriasis  (ISO)
pulmonary emphysema  (ISO)
pulmonary fibrosis  (IEP,ISO)
pulmonary hypertension  (ISO)
renal fibrosis  (IDA,ISO)
rheumatoid arthritis  (ISO)
rosacea  (ISO)
schistosomiasis  (ISO)
schizophrenia  (ISO)
schizotypal personality disorder  (ISO)
Sepsis  (IMP)
Skin Neoplasms  (ISO)
Spinal Cord Injuries  (IEP)
Stroke  (IDA,ISO)
Subarachnoid Hemorrhage  (IEP)
systemic lupus erythematosus  (ISO)
systemic scleroderma  (ISO)
Takayasu's arteritis  (ISO)
thromboangiitis obliterans  (IDA,IEP)
Tongue Neoplasms  (IDA)
toxic shock syndrome  (ISO)
transient cerebral ischemia  (IEP,ISO)
tuberculosis  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (IDA,IEP,ISO)
uremia  (IEP)
ureteral obstruction  (ISO)
Vascular Calcification  (ISO)
vascular skin disease  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2,2-tetramine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
3,4-dihydroxybenzaldehyde  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (ISO)
acrolein  (EXP,ISO)
acrylamide  (ISO)
aldehydo-D-glucose  (EXP,ISO)
aldehydo-D-ribose  (ISO)
all-trans-retinol  (EXP)
allyl isothiocyanate  (ISO)
alpha-D-galactose  (ISO)
aminoguanidine  (ISO)
ammonium chloride  (EXP)
ampicillin  (ISO)
anthocyanin  (ISO)
arsane  (EXP)
arsenic atom  (EXP)
azathioprine  (ISO)
benazepril  (EXP)
benzo[a]pyrene  (ISO)
Bergenin  (ISO)
bis(2-chloroethyl) sulfide  (EXP)
bisphenol A  (EXP)
Bisphenol A diglycidyl ether  (EXP)
bleomycin A2  (EXP)
butanal  (ISO)
C60 fullerene  (ISO)
cadmium dichloride  (EXP)
calcitriol  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chlorohydrocarbon  (ISO)
cholesterol  (ISO)
cisplatin  (ISO)
curcumin  (EXP)
D-glucose  (EXP,ISO)
D-ribofuranose  (ISO)
dichlorine  (EXP)
diclofenac  (ISO)
dicloxacillin  (ISO)
dioxygen  (EXP)
disodium selenite  (EXP)
estriol  (ISO)
ethanol  (ISO)
febuxostat  (EXP)
flutamide  (ISO)
fructose  (EXP)
fulvestrant  (ISO)
furan  (EXP)
galactose  (ISO)
gallic acid  (EXP)
genistein  (EXP)
geraniol  (EXP)
glucose  (EXP,ISO)
graphene oxide  (ISO)
Honokiol  (ISO)
hydrogen peroxide  (EXP)
leflunomide  (ISO)
linoleic acid  (EXP)
lipopolysaccharide  (EXP,ISO)
losartan  (EXP)
luteolin  (ISO)
LY294002  (EXP)
lycopene  (ISO)
mangiferin  (EXP)
mebendazole  (ISO)
melatonin  (ISO)
mesalamine  (EXP)
metformin  (EXP)
methylglyoxal  (ISO)
methylmercury chloride  (EXP)
naphthalene  (ISO)
oleanolic acid  (ISO)
oxidopamine  (EXP)
ozone  (EXP)
paracetamol  (ISO)
paraquat  (EXP)
pentanal  (ISO)
pentetrazol  (EXP)
permethrin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pioglitazone  (EXP)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
procyanidin B2  (EXP)
procyanidin B3  (ISO)
propanal  (ISO)
protein kinase inhibitor  (EXP)
Pyridostigmine bromide  (ISO)
quercetin  (ISO)
reactive oxygen species  (EXP)
resveratrol  (ISO)
rotenone  (ISO)
rutin  (ISO)
SB 203580  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (EXP)
streptozocin  (EXP,ISO)
titanium dioxide  (ISO)
toluene 2,4-diisocyanate  (ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
vinclozolin  (EXP)
zinc atom  (EXP,ISO)
zinc(0)  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
astrocyte activation  (IEA,ISO)
astrocyte development  (ISO)
brain development  (IEP)
calcium ion homeostasis  (IMP)
cellular response to amyloid-beta  (IEA,ISO)
cellular response to drug  (IEP)
cellular response to fatty acid  (IEP)
cellular response to glucose stimulus  (IEP)
cellular response to hydrogen peroxide  (IEP)
cellular response to organic cyclic compound  (IEP)
glucose mediated signaling pathway  (IEA,ISO)
glycoprotein metabolic process  (IEP)
induction of positive chemotaxis  (IEA,ISO)
inflammatory response  (IEA,ISO)
learning or memory  (IEA,ISO)
lung development  (IEP)
microglial cell activation  (IEA,ISO)
modulation of age-related behavioral decline  (IEA,ISO)
negative regulation of advanced glycation end-product receptor activity  (ISO)
negative regulation of blood circulation  (IEA,ISO)
negative regulation of cell adhesion  (IMP)
negative regulation of collagen biosynthetic process  (IMP)
negative regulation of connective tissue replacement involved in inflammatory response wound healing  (ISO)
negative regulation of endothelial cell migration  (IMP)
negative regulation of endothelial cell proliferation  (IMP)
negative regulation of interleukin-10 production  (IEA,ISO)
negative regulation of long-term synaptic depression  (IEA,ISO)
negative regulation of long-term synaptic potentiation  (IEA,ISO)
negative regulation of osteoblast proliferation  (IEP)
negative regulation of protein phosphorylation  (IMP)
neuron projection development  (IEA,IGI,IMP,ISO)
positive regulation of activated T cell proliferation  (IEA,ISO)
positive regulation of apoptotic process  (IMP)
positive regulation of aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process  (IEA,ISO)
positive regulation of autophagy  (IMP)
positive regulation of cell migration  (IMP)
positive regulation of chemokine production  (ISO)
positive regulation of dendritic cell differentiation  (IEA,ISO)
positive regulation of endothelial cell apoptotic process  (IMP)
positive regulation of endothelin production  (IEA,ISO)
positive regulation of epithelial to mesenchymal transition  (IMP)
positive regulation of ERK1 and ERK2 cascade  (IEA,ISO)
positive regulation of fibroblast migration  (IMP)
positive regulation of fibroblast proliferation  (IMP)
positive regulation of gene expression  (IMP)
positive regulation of heterotypic cell-cell adhesion  (IEA,ISO)
positive regulation of inflammatory response  (IMP)
positive regulation of interleukin-1 beta production  (IEA,ISO)
positive regulation of interleukin-12 production  (IEA,ISO)
positive regulation of interleukin-6 production  (IEA,ISO)
positive regulation of JNK cascade  (IEA,ISO)
positive regulation of JUN kinase activity  (IEA,ISO)
positive regulation of monocyte chemotactic protein-1 production  (IEA,ISO)
positive regulation of monocyte extravasation  (IEA,ISO)
positive regulation of neuron apoptotic process  (IMP)
positive regulation of neuron death  (IMP)
positive regulation of NF-kappaB transcription factor activity  (IEA,ISO)
positive regulation of NIK/NF-kappaB signaling  (IEA,ISO)
positive regulation of p38MAPK cascade  (IEA,ISO)
positive regulation of phagocytosis, engulfment  (IMP)
positive regulation of potassium ion transmembrane transporter activity  (IMP)
positive regulation of protein phosphorylation  (IMP,ISO)
positive regulation of reactive oxygen species metabolic process  (IMP)
positive regulation of smooth muscle cell migration  (IMP)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of tumor necrosis factor production  (IEA,ISO)
positive regulation of type B pancreatic cell apoptotic process  (IMP)
protein localization to membrane  (IEA,ISO)
receptor signaling pathway via JAK-STAT  (IMP)
regulation of CD4-positive, alpha-beta T cell activation  (IEA,ISO)
regulation of DNA binding  (IEA,ISO)
regulation of inflammatory response  (IEA,ISO)
regulation of long-term synaptic potentiation  (ISO)
regulation of p38MAPK cascade  (ISO)
regulation of spontaneous synaptic transmission  (IEA,ISO)
regulation of T cell mediated cytotoxicity  (IEA,ISO)
response to activity  (IEP)
response to amyloid-beta  (ISO)
response to fructose  (IEP)
response to genistein  (IEP)
response to hyperoxia  (IEP)
response to hypoxia  (IEA,ISO)
response to methylglyoxal  (IEP)
response to selenite ion  (IEP)
response to vitamin A  (IEP)
transcytosis  (IEA,ISO)
transdifferentiation  (IEP)
transport across blood-brain barrier  (IEA,ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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Additional References at PubMed
PMID:9224812   PMID:10391939   PMID:10399917   PMID:11078691   PMID:12477932   PMID:14744997   PMID:15033494   PMID:15039226   PMID:15155381   PMID:15158469   PMID:15381690   PMID:15457210  
PMID:15781751   PMID:15930093   PMID:15944249   PMID:16503878   PMID:17095586   PMID:18039581   PMID:18245812   PMID:18323529   PMID:18367618   PMID:18390831   PMID:18452184   PMID:18606705  
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PMID:20858979   PMID:20945382   PMID:21098642   PMID:21148126   PMID:21257730   PMID:21343866   PMID:21450369   PMID:21512281   PMID:21570918   PMID:21606643   PMID:21614209   PMID:22406537  
PMID:22449800   PMID:22473704   PMID:22577135   PMID:23109892   PMID:23209312   PMID:23525442   PMID:23823020   PMID:23880178   PMID:23973487   PMID:24029001   PMID:24119142   PMID:24260107  
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PMID:30633750   PMID:31003767   PMID:31136947   PMID:31158467  


Genomics

Comparative Map Data
Ager
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2204,148,150 - 4,151,361 (-)NCBI
Rnor_6.0 Ensembl204,363,152 - 4,366,079 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0204,363,152 - 4,366,079 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0206,442,508 - 6,445,435 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4204,250,613 - 4,253,540 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1204,250,839 - 4,253,767 (-)NCBI
Celera203,879,126 - 3,882,053 (+)NCBICelera
Cytogenetic Map20p12NCBI
AGER
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl632,180,968 - 32,184,322 (-)EnsemblGRCh38hg38GRCh38
GRCh38632,180,969 - 32,184,380 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37632,148,746 - 32,152,030 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36632,256,724 - 32,260,001 (-)NCBINCBI36hg18NCBI36
Build 34632,256,723 - 32,260,001NCBI
Celera633,715,793 - 33,719,070 (-)NCBI
Cytogenetic Map6p21.32NCBI
HuRef631,902,943 - 31,906,297 (-)NCBIHuRef
CHM1_1632,151,229 - 32,154,583 (-)NCBICHM1_1
Ager
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391734,816,545 - 34,819,911 (+)NCBIGRCm39mm39
GRCm39 Ensembl1734,816,836 - 34,819,910 (+)Ensembl
GRCm381734,597,460 - 34,600,937 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1734,597,862 - 34,600,936 (+)EnsemblGRCm38mm10GRCm38
MGSCv371734,734,807 - 34,737,877 (+)NCBIGRCm37mm9NCBIm37
MGSCv361734,205,945 - 34,208,989 (+)NCBImm8
Celera1737,693,022 - 37,696,092 (+)NCBICelera
Cytogenetic Map17B1NCBI
Ager
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955437645,897 - 648,479 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955437645,482 - 648,607 (-)NCBIChiLan1.0ChiLan1.0
AGER
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1632,708,251 - 32,711,641 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl632,708,251 - 32,711,641 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0631,828,363 - 31,831,981 (-)NCBIMhudiblu_PPA_v0panPan3
AGER
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,574,251 - 1,577,410 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl121,574,251 - 1,577,129 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,707,946 - 1,710,824 (-)NCBI
ROS_Cfam_1.0121,712,483 - 1,715,623 (-)NCBI
UMICH_Zoey_3.1121,575,515 - 1,578,386 (-)NCBI
UNSW_CanFamBas_1.0121,641,097 - 1,643,974 (-)NCBI
UU_Cfam_GSD_1.0121,707,421 - 1,710,298 (-)NCBI
Ager
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494636,139,331 - 36,142,908 (-)NCBI
SpeTri2.0NW_0049367271,418,342 - 1,422,005 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AGER
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl724,218,116 - 24,228,756 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1724,218,116 - 24,221,162 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2728,038,957 - 28,042,327 (-)NCBISscrofa10.2Sscrofa10.2susScr3
AGER
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11739,847,343 - 39,851,288 (+)NCBI
ChlSab1.1 Ensembl1739,847,759 - 39,851,127 (+)Ensembl
Vero_WHO_p1.0NW_02366604432,080,456 - 32,084,078 (-)NCBI
Ager
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475424,138,086 - 24,140,900 (+)NCBI

Position Markers
RH133750  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,147,793 - 4,147,984 (-)MAPPER
Rnor_6.0204,366,245 - 4,366,435NCBIRnor6.0
Rnor_5.0206,445,601 - 6,445,791UniSTSRnor5.0
RGSC_v3.4204,250,257 - 4,250,447UniSTSRGSC3.4
Celera203,882,219 - 3,882,409UniSTS
RH 3.4 Map2053.3UniSTS
Cytogenetic Map20p12UniSTS
PMC162222P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,149,485 - 4,150,413 (-)MAPPER
Rnor_6.0204,363,817 - 4,364,744NCBIRnor6.0
Rnor_5.0206,443,173 - 6,444,100UniSTSRnor5.0
RGSC_v3.4204,251,948 - 4,252,875UniSTSRGSC3.4
Celera203,879,791 - 3,880,718UniSTS
Cytogenetic Map20p12UniSTS
AI453961  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,148,217 - 4,148,512 (-)MAPPER
Rnor_6.0204,365,717 - 4,366,011NCBIRnor6.0
Rnor_5.0206,445,073 - 6,445,367UniSTSRnor5.0
RGSC_v3.4204,250,681 - 4,250,975UniSTSRGSC3.4
Celera203,881,691 - 3,881,985UniSTS
RH 3.4 Map2053.83UniSTS
Cytogenetic Map20p12UniSTS
AI176804  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2204,151,744 - 4,151,845 (-)MAPPER
Rnor_6.0204,362,385 - 4,362,485NCBIRnor6.0
Rnor_5.0206,441,741 - 6,441,841UniSTSRnor5.0
RGSC_v3.4204,254,207 - 4,254,307UniSTSRGSC3.4
Celera203,878,359 - 3,878,459UniSTS
RH 3.4 Map2052.92UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2015192000Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124652101Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125653396Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20127357423Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20128375393Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20128375393Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20128375393Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20128375393Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20128375393Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2020187706567419Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2031518156896013Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2031518156896013Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20340211127968216Rat
7175096Tcs1T cell selection QTL 1T cell selectionexpression2039105555533640Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2040391135875448Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20403911318872273Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20403911318872273Rat
737973Pia21Pristane induced arthritis QTL 214.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2040393174855475Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:135
Count of miRNA genes:78
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000000508, ENSRNOT00000072848
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 7
Medium 4 2 2 1 2 38 14 22 4
Low 3 39 55 39 18 39 8 11 36 21 18 8
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006256025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC084697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BX883044 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR475487 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164718 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164719 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164720 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164721 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164722 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GU164726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L33413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000000508   ⟹   ENSRNOP00000000508
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,363,152 - 4,366,079 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000072848   ⟹   ENSRNOP00000066649
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,363,186 - 4,366,050 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077205   ⟹   ENSRNOP00000075474
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,363,508 - 4,365,317 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077561   ⟹   ENSRNOP00000073680
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,363,186 - 4,366,050 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000080289
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,365,587 - 4,366,078 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084841   ⟹   ENSRNOP00000072071
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,363,186 - 4,366,050 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000085277
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,363,186 - 4,366,050 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089721
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,363,186 - 4,366,050 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000091105
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl204,363,351 - 4,364,019 (+)Ensembl
RefSeq Acc Id: NM_053336   ⟹   NP_445788
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,148,150 - 4,151,078 (-)NCBI
Rnor_6.0204,363,152 - 4,366,079 (+)NCBI
Rnor_5.0206,442,508 - 6,445,435 (+)NCBI
RGSC_v3.4204,250,613 - 4,253,540 (-)RGD
Celera203,879,126 - 3,882,053 (+)RGD
Sequence:
RefSeq Acc Id: XM_006256025   ⟹   XP_006256087
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2204,148,150 - 4,151,361 (-)NCBI
Rnor_6.0204,363,153 - 4,366,078 (+)NCBI
Rnor_5.0206,442,508 - 6,445,435 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_445788   ⟸   NM_053336
- Peptide Label: precursor
- UniProtKB: Q6MG86 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006256087   ⟸   XM_006256025
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K218 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000075474   ⟸   ENSRNOT00000077205
RefSeq Acc Id: ENSRNOP00000072071   ⟸   ENSRNOT00000084841
RefSeq Acc Id: ENSRNOP00000066649   ⟸   ENSRNOT00000072848
RefSeq Acc Id: ENSRNOP00000000508   ⟸   ENSRNOT00000000508
RefSeq Acc Id: ENSRNOP00000073680   ⟸   ENSRNOT00000077561
Protein Domains
Ig-like   Ig-like C2-type   Ig-like V-type

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701339
Promoter ID:EPDNEW_R11863
Type:multiple initiation site
Name:Ager_2
Description:advanced glycosylation end product-specific receptor
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11864  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0204,363,173 - 4,363,233EPDNEW
RGD ID:13701347
Promoter ID:EPDNEW_R11864
Type:single initiation site
Name:Ager_1
Description:advanced glycosylation end product-specific receptor
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R11863  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0204,363,385 - 4,363,445EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69258 AgrOrtholog
Ensembl Genes ENSRNOG00000000439 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000508 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000066649 UniProtKB/TrEMBL
  ENSRNOP00000072071 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073680 UniProtKB/TrEMBL
  ENSRNOP00000075474 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000508 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000072848 UniProtKB/TrEMBL
  ENSRNOT00000077205 UniProtKB/TrEMBL
  ENSRNOT00000077561 UniProtKB/TrEMBL
  ENSRNOT00000084841 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7121345 IMAGE-MGC_LOAD
InterPro CD80_C2-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:81722 UniProtKB/TrEMBL
MGC_CLONE MGC:105376 IMAGE-MGC_LOAD
NCBI Gene 81722 ENTREZGENE
Pfam C2-set_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ager PhenoGen
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_MHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IGc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC208219
UniProt A0A0G2K218 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K653_RAT UniProtKB/TrEMBL
  A0A0G2KAP4_RAT UniProtKB/TrEMBL
  F1ABR3_RAT UniProtKB/TrEMBL
  F1ABR4_RAT UniProtKB/TrEMBL
  F1ABR5_RAT UniProtKB/TrEMBL
  F1ABR6_RAT UniProtKB/TrEMBL
  M0RAU0_RAT UniProtKB/TrEMBL
  Q63495 ENTREZGENE
  Q6MG86 ENTREZGENE, UniProtKB/TrEMBL
  RAGE_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Ager  advanced glycosylation end product-specific receptor       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_mapping is found within the rat major histocompatibility RT1 complex. 1300431
gene_process mediates interactions of advanced glycosylation end products (age), which accumulate in vascular tissue in aging and at an accelerated rate in diabetes 724707